Kazuharu Arakawa

Kazuharu Arakawa

Associate Professor
Faculty of Environment and Information Studies
Graduate School of Media and Governance
Born1979
DegreesPh.D.
Short Biography[Education]
2006 Ph.D in Bioinformatics, Keio University
2004 M.A. in Bioinformatics, Keio University
2002 Bachelor in Bioinformatics, Keio University

[Positions]
2004-2007 Research Fellow, Japan Society for the Promotion of Science
2005-2007 Lecturer (part time), Keio University
2007-2009 Research Associate, Institute for Advanced Biosciences, Keio University
2009-2014 Project Assistant Professor, Institute for Advanced Biosciences, Keio University
2014-2017 Project Associate Professor, Institute for Advanced Biosciences, Keio University
2017- Associate Professor, Faculty of Environment and Information Studies, Keio University
Areas of ExpertiseBioinformatics, Systems Biology, Genome Science
Courses TaughtSPECIAL RESEARCH PROJECT,WORKSHOPS ON GENOME ANALYSIS,ADVANCED RESEARCH(SYSTEMS BIOLOGY),GENOME ENGINEERING LABORATORY,SPECIAL RESEARCH PROJECT A,GENERAL TECHNOLOGY,MANAGEMENT ENGINEERING,REGIONAL POLICY,INTRODUCTION TO JAPANOLOGY,ENGINEERING ETHICS,BASIC ECOLOGY,CELLULAR BIOCHEMISTRY,FOOD MICROBIOLOGY,CONSERVATION OF BIODIVERSITY,INTRODUCTORY MICROBIOLOGY,INTRODUCTION TO BOTANY,MASTER SEMINAR,SEMINAR(Genome Biology (Advanced Biosciences)),SEMINAR(Transcriptome analysis of non-model organisms),GRADUATE SCHOOL PROJECT (Systems Biology Project/Seminar)
AffiliationsJapan Society for Bioinformatics, Molecular Biology Society of Japan, Japan Open-Bio Research Group, International Society for Computational Biology, Open Bioinformatics Foundation
Selected Publications[Publications] (see http://tinyurl.com/arakawa-publications for full listings)
* Yoshida Y, Koutsovoulos G, Laetsch DR, Stevens L, Kumar S, Horikawa DD, Ishino K, Komine S, Kunieda T, Tomita M, Blaxter M, Arakawa K, “Comparative genomics of the tardigrades Hypsibius dujardini and Ramazzottius varieornatus”, PLoS Biol, 2017, 15(7):e2002266.
*Hashimoto T, Horikawa DD*, Saito Y, Kuwahara H, Kozuka-Hata H, Shin-I T, Minakuchi Y, Ohishi K, Motoyama A, Aizu M, Enomoto A, Kondo K, Tanaka S, Hara Y, Koshikawa S, Sagara H, Miura T, Yokobori S, Miyagawa K, Suzuki Y, Kubo T, Oyama M, Kohara Y, Fujiyama A, Arakawa K , Katayama T, Toyoda A, Kunieda T, “Extremotolerant tardigrade genome and improved radiotolerance of human cultured cells by tardigrade-unique protein”, Nature Communications, 2016, 7:12808.
* Arakawa K, “No evidence for extensive horizontal gene transfer from the draft genome of a tardigrade”, PNAS, 2016, 113(22):E3057.
* Kono N, Nakamura H, Ito Y, Tomita M, Arakawa K, "Evaluation of the impact of RNA preservation methods of spiders for de novo transcriptome assembly", Molecular Ecology Resources, 2016, 16(3): 662-672.
* Arakawa K, Tomita M, "Genome Analysis Workshop: a Personal Genomics class at Keio SFC", Keio SFC Journal, 2014, 14(1):158-177.
* Arakawa K, "Comparative metabolomics of anhydrobiosis in tardigrade Ramazzottius varieornatus", Journal of Japanese Society for Extremophiles, 2013, 11(2), 75-82.
* Arakawa K, Tomita M, "Merging Multiple Omics Datasets In Silico: Statistical Analyses and Data Interpretation", Methods Mol. Biol. 2013, 985:459-470.
* Arakawa K*, Tomita M, "Measures of Compositional Strand Bias Related to Replication Machinery and its Applications", Current Genomics, 2012, 13(1):4-15.
* Arakawa K, Kido N, Oshita K, Tomita M, "G-language Genome Analysis Environment with REST and SOAP Web Service Interfaces", Nucleic Acids Research, 2010, 48:W700-W705.
* Arakawa K, Suzuki H, Tomita M, "Quantitative analysis of replication-related mutation and selection pressures in bacterial chromosomes and plasmids using generalised GC skew index",BMC Genomics, 2009
* Arakawa K, Tamaki S, Kono N, Kido N, Ikegami K, Ogawa R and Tomita M, "Genome Projector: zoomable genome map with multiple views", BMC Bioinformatics, 2009, 10:31.
* Arakawa K, Suzuki H, Tomita M, "Computational Genome Analysis Using The G-language System", Genes Genomes and Genomics, 2008, 2(1): 1-13.
* Arakawa K, Tomita M, "Large-scale Modeling for Systems Biology", BIOforum Europe, 2006, 10:54-55.
* Arakawa K, Tomita M, "G-language System as a platform for large-scale analysis of high-throughput omics data", Journal of Pesticide Science, 2006, 31(3):282-288.
* Arakawa K, Yamada Y, Shinoda K, Nakayama Y, Tomita M, "GEM System: Automatic prototyping of cell-wide metabolic pathway models from genomes", BMC Bioinformatics, 2006, 7:168.
* Arakawa K, Mori K, Ikeda K, Matsuzaki T, Kobayashi Y, Tomita M, "G-language Genome Analysis Environment: a workbench for nucleotide sequence data mining", Bioinformatics, 2003, 19(2):305-306
Message to StudentsFocus on your interest, and think "output". Everything required for that output will eventually be around you if you are really committed to your interest.
Project Web Pagehttp://www.iab.keio.ac.jp/
Home Pagehttp://bioinformatician.org/
Contact Information5322 Endo Fujisawa, Kanagawa 252-0882 Japan
Keio University Shonan Fujisawa Campus